genome.fa.s8668.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1078 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171046--1171071	2	13.0	2	100	0	52	50	0	0	50	1.00
1178515--1178556	20	2.2	20	86	4	59	40	0	0	59	0.97
1179947--1180004	12	4.7	12	75	12	55	41	0	1	56	1.09
1179958--1180004	23	2.0	23	88	8	69	40	0	2	57	1.11
1180276--1180308	3	11.3	3	93	6	59	30	0	0	69	0.88
1181451--1181505	5	10.6	5	84	7	74	78	3	1	16	0.98
1181451--1181516	32	2.0	33	91	2	107	74	7	3	15	1.17
1182388--1182417	12	2.5	12	100	0	60	46	40	13	0	1.43
1201038--1201089	17	3.1	17	72	13	54	42	3	3	50	1.39
1201320--1201364	19	2.3	20	88	3	65	13	20	40	26	1.89
1201320--1201364	10	4.6	10	83	5	65	13	20	40	26	1.89
1203294--1203373	39	2.1	39	83	4	99	38	6	25	30	1.80
1208831--1208866	18	2.0	18	100	0	72	16	27	16	38	1.90
1217454--1217503	25	2.0	25	100	0	100	52	8	16	24	1.70
1219488--1219574	30	2.9	30	76	8	95	22	28	20	27	1.99
1222911--1222946	18	2.0	18	100	0	72	16	27	16	38	1.90
1223623--1223653	2	15.5	2	100	0	62	51	0	0	48	1.00
1229949--1230020	34	2.1	34	94	0	126	50	18	9	22	1.76
1230919--1230964	21	2.1	22	96	4	85	45	4	0	50	1.21
1230926--1230976	21	2.5	21	87	9	70	49	7	0	43	1.32
1231005--1231051	23	2.0	23	88	8	69	40	0	2	57	1.11
1232010--1232276	134	2.0	134	98	0	516	22	20	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242443--1242467	13	1.9	13	100	0	50	32	12	24	32	1.91
1244228--1244260	12	2.8	12	95	0	57	3	9	45	42	1.51
1245048--1245073	3	8.7	3	100	0	52	30	0	0	69	0.89
1246628--1246663	18	2.0	18	100	0	72	16	27	16	38	1.90
1258543--1258582	21	1.9	21	90	10	64	12	12	40	35	1.81
1258794--1258856	21	3.3	21	66	25	66	22	19	28	30	1.98
1258766--1258937	36	4.8	36	92	1	283	23	22	25	27	2.00
1259149--1259206	18	3.1	18	80	11	71	48	8	12	31	1.70
1262164--1262203	21	1.9	22	90	10	66	12	10	40	37	1.77
1262304--1262378	19	4.3	19	77	17	74	25	17	36	21	1.95
1262326--1262355	15	2.0	15	93	0	51	26	23	26	23	2.00
1262307--1262371	34	1.9	33	90	3	103	24	20	32	23	1.98
1262306--1262388	17	4.8	17	77	14	73	24	19	33	22	1.97
1262306--1262389	34	2.4	34	77	15	91	23	20	33	22	1.97
1263049--1263104	28	2.0	28	92	0	94	37	8	10	42	1.71
1263666--1263712	25	1.9	25	82	4	60	21	10	10	57	1.62
1264111--1264250	70	2.0	70	94	0	244	44	8	9	37	1.67
1265159--1265184	3	8.7	3	100	0	52	30	0	0	69	0.89
1266737--1266772	18	2.0	18	100	0	72	16	27	16	38	1.90
1269103--1269135	2	16.5	2	100	0	66	48	0	0	51	1.00
1273245--1273322	30	2.6	29	82	6	102	20	28	23	28	1.99
1275558--1275592	2	17.5	2	100	0	70	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1275594--1275621	13	2.2	13	100	0	56	60	0	39	0	0.97
1276212--1276283	34	2.1	34	92	0	117	52	16	6	23	1.68
1277193--1277238	21	2.1	22	96	4	85	45	4	0	50	1.21
1277200--1277250	21	2.5	21	87	9	70	49	7	0	43	1.32
1277279--1277325	23	2.0	23	88	8	69	40	0	2	57	1.11
1280914--1280949	18	2.0	18	100	0	72	16	27	16	38	1.90
1281638--1281694	2	28.5	2	100	0	114	50	0	0	49	1.00
1282295--1282320	2	13.0	2	100	0	52	50	0	0	50	1.00
1283269--1283314	21	2.1	22	96	4	85	45	4	0	50	1.21
1283276--1283326	21	2.5	21	87	9	70	49	7	0	43	1.32
1284360--1284627	135	2.0	135	95	0	484	22	20	23	33	1.97
1290449--1290533	41	2.1	41	95	0	152	24	11	3	60	1.47
1290905--1290955	23	2.2	23	96	0	93	39	9	5	45	1.62
1291580--1291630	25	2.1	25	96	3	95	29	11	11	47	1.76
1297253--1297277	13	1.9	13	100	0	50	32	4	24	40	1.73
1299023--1299055	12	2.8	12	95	0	57	3	9	45	42	1.51
1308035--1308091	21	2.8	20	75	15	62	28	0	29	42	1.56
1309368--1309436	35	2.0	35	97	0	129	23	15	14	46	1.83
1311534--1311739	102	2.0	105	97	2	391	38	16	22	21	1.92
1313773--1313850	30	2.6	29	82	6	93	21	28	23	26	1.99
1318288--1318328	14	2.7	16	81	14	59	58	19	0	21	1.39
1324463--1324495	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1324703--1325410	54	13.0	54	83	7	575	25	24	17	33	1.96
1325012--1325407	217	1.8	217	92	2	679	23	24	19	33	1.97
1324700--1325414	55	13.1	54	85	4	638	24	24	17	33	1.96
1326747--1326795	14	3.4	14	83	13	55	6	10	0	83	0.80
1326762--1326817	15	3.7	15	77	11	53	1	17	0	80	0.80
1326746--1326801	23	2.4	23	88	5	78	5	12	0	82	0.83
1326768--1326804	12	3.2	12	88	3	58	0	18	0	81	0.70
1333005--1333367	178	2.0	184	96	3	684	20	26	16	35	1.94
1334119--1334172	22	2.3	23	84	15	67	57	9	12	20	1.63
1336709--1336748	20	2.0	21	85	14	57	42	5	7	45	1.54
1336965--1337127	65	2.5	65	82	3	204	30	25	15	28	1.96
1343345--1343392	24	2.0	24	83	0	60	33	4	6	56	1.44
1343660--1343723	21	3.0	21	76	13	69	20	45	6	28	1.75
1344523--1344566	21	2.1	21	86	0	61	6	34	15	43	1.74
1345336--1345375	20	2.0	21	85	14	57	42	5	7	45	1.54
1345567--1345662	28	3.4	27	69	17	88	32	18	16	32	1.94
1345553--1345671	56	2.1	55	90	4	193	31	20	16	31	1.95
1350457--1350592	24	5.7	24	91	0	209	36	21	18	23	1.95
1352941--1353020	13	6.4	13	81	8	103	16	20	45	18	1.86
1352949--1353023	23	3.1	23	88	5	96	14	18	46	20	1.84
1355631--1355790	24	6.7	24	93	0	266	35	22	18	23	1.96
1358197--1358253	18	3.2	18	87	0	87	15	21	45	17	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359105--1359143	2	20.0	2	94	5	71	51	0	0	48	1.00
1361786--1361817	2	16.0	2	93	0	55	53	0	0	46	1.00
1361784--1361822	12	3.2	12	88	0	60	56	0	0	43	0.99
1362813--1362859	23	2.0	23	88	8	69	40	0	2	57	1.11
1364276--1364344	5	13.4	5	82	11	86	78	2	1	17	0.95
1364641--1364972	163	2.0	163	94	0	574	42	16	15	24	1.88
1376430--1376463	17	2.1	16	88	5	50	14	8	23	52	1.69
1376678--1376836	64	2.5	63	82	11	173	28	16	23	31	1.96
1378695--1378738	21	2.1	21	91	0	70	40	15	36	6	1.74
1385552--1385585	17	2.1	16	88	5	50	14	8	23	52	1.69
1385801--1386009	64	3.2	64	79	11	187	27	16	23	32	1.96
1385971--1386009	20	2.0	20	94	0	69	23	15	30	30	1.95
1393260--1393334	35	2.1	36	87	2	107	30	13	38	17	1.88
1393391--1393477	38	2.3	37	78	7	104	52	0	0	47	1.00
1393649--1393680	11	2.9	11	100	0	64	15	56	28	0	1.40
1396094--1396181	24	3.7	24	75	6	97	21	14	17	46	1.83
1400842--1400941	24	4.2	24	74	5	94	22	14	17	47	1.82
1401200--1401229	15	1.9	16	93	6	53	40	16	10	33	1.82
1410673--1410727	23	2.4	23	90	0	83	34	12	18	34	1.89
1411382--1411417	3	11.7	3	88	5	54	36	2	0	61	1.11
1411524--1411578	22	2.5	22	88	2	85	21	47	21	9	1.78
1411966--1412020	27	2.0	27	92	0	92	32	10	29	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416994--1417086	24	3.9	24	74	5	89	22	13	17	46	1.83
1416987--1417093	24	4.5	24	72	0	88	21	12	16	49	1.78
1422139--1422345	29	7.0	29	68	13	127	42	5	22	29	1.75
1422162--1422260	31	3.3	31	73	11	114	40	5	25	29	1.77
1422142--1422357	60	3.6	60	87	4	287	43	6	21	29	1.76
1422162--1422273	31	3.7	31	74	9	113	41	4	24	29	1.74
1422142--1422357	118	1.8	120	84	6	296	43	6	21	29	1.76
1426679--1426725	3	16.0	3	87	12	71	36	0	0	63	0.94
1426678--1426722	14	3.1	14	87	12	65	37	0	0	62	0.96
1426679--1426725	17	2.7	17	96	3	85	36	0	0	63	0.94

Tables:   1   2   3   4   5   6   7   8   9